Finding the unloaded geometryΒΆ
from fenics_plotly import plot
import pulse
geometry = pulse.HeartGeometry.from_file(pulse.mesh_paths["simple_ellipsoid"])
# geometry = pulse.geometries.prolate_ellipsoid_geometry(mesh_size_factor=3.0)
material = pulse.NeoHookean()
# material = pulse.Guccione()
2021-11-27 09:50:58,441 [732] INFO pulse.geometry_utils:
Load mesh from h5
# Parameter for the cardiac boundary conditions
bcs_parameters = pulse.MechanicsProblem.default_bcs_parameters()
bcs_parameters["base_spring"] = 1.0
bcs_parameters["base_bc"] = "fix_x"
# Create the problem
problem = pulse.MechanicsProblem(geometry, material, bcs_parameters=bcs_parameters)
# Suppose geometry is loaded with a pressure of 1 kPa
# and create the unloader
unloader = pulse.FixedPointUnloader(problem=problem, pressure=3.0)
2021-11-27 09:50:58,630 [732] INFO pulse.unloader:
-------------------------- Unloading options ---------------------------
Target pressure: 3.0
maxiter = 10
tolerance = 0.0001
regenerate_fibers (serial only)= False
------------------------------------------------------------------------
# Unload the geometry
unloader.unload()
2021-11-27 09:50:58,639 [732] INFO pulse.unloader: ------------------------------------------------------------------------
2021-11-27 09:50:58,640 [732] INFO pulse.unloader: ----------------------------Start unloading-----------------------------
2021-11-27 09:50:58,642 [732] INFO pulse.unloader: ------------------------------------------------------------------------
2021-11-27 09:50:58,646 [732] INFO pulse.unloader:
LV Volume of original geometry = 0.749 ml
2021-11-27 09:50:58,690 [732] INFO pulse.unloader:
Do an intial solve
2021-11-27 09:51:03,909 [732] INFO pulse.unloader:
Iteration: 0
2021-11-27 09:51:04,345 [732] INFO pulse.unloading_utils:
LV Volume of original geometry = 0.568 ml
2021-11-27 09:51:09,704 [732] INFO pulse.unloading_utils:
LV Volume of inflated geometry = 0.568 ml
2021-11-27 09:51:10,154 [732] INFO pulse.unloading_utils:
LV Volume of new reference geometry = 0.717 ml
2021-11-27 09:51:10,212 [732] INFO pulse.unloader:
Residual: 0.011328623428538232
2021-11-27 09:51:10,213 [732] INFO pulse.unloader:
Iteration: 1
2021-11-27 09:51:10,671 [732] INFO pulse.unloading_utils:
LV Volume of original geometry = 0.596 ml
2021-11-27 09:51:16,017 [732] INFO pulse.unloading_utils:
LV Volume of inflated geometry = 0.596 ml
2021-11-27 09:51:16,468 [732] INFO pulse.unloading_utils:
LV Volume of new reference geometry = 0.754 ml
2021-11-27 09:51:16,509 [732] INFO pulse.unloader:
Residual: 0.0016980102145400784
2021-11-27 09:51:16,509 [732] INFO pulse.unloader:
Iteration: 2
2021-11-27 09:51:16,929 [732] INFO pulse.unloading_utils:
LV Volume of original geometry = 0.592 ml
2021-11-27 09:51:22,155 [732] INFO pulse.unloading_utils:
LV Volume of inflated geometry = 0.592 ml
2021-11-27 09:51:22,579 [732] INFO pulse.unloading_utils:
LV Volume of new reference geometry = 0.749 ml
2021-11-27 09:51:22,628 [732] INFO pulse.unloader:
Residual: 0.00025928769312994886
2021-11-27 09:51:22,630 [732] INFO pulse.unloader:
Iteration: 3
2021-11-27 09:51:23,048 [732] INFO pulse.unloading_utils:
LV Volume of original geometry = 0.593 ml
2021-11-27 09:51:28,297 [732] INFO pulse.unloading_utils:
LV Volume of inflated geometry = 0.593 ml
2021-11-27 09:51:28,722 [732] INFO pulse.unloading_utils:
LV Volume of new reference geometry = 0.750 ml
2021-11-27 09:51:28,774 [732] INFO pulse.unloader:
Residual: 3.9313042959155325e-05
2021-11-27 09:51:28,777 [732] INFO pulse.unloader: ########################################################################
Unloading suceeding
# Get the unloaded geometry
unloaded_geometry = unloader.unloaded_geometry
fig = plot(geometry.mesh, opacity=0.0, show=False)
fig.add_plot(plot(unloaded_geometry.mesh, color="red", show=False))
fig.show()